Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.1.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.98055	0.033
27DAP/17DAP	0.93086	0.885
39DAP/27DAP	0.86034	0.544
41DAP/39DAP	1.09308	0.549
42DAP/41DAP	1.96351	0.072
43DAP/42DAP	0.79465	0.61
47DAP/43DAP	0.90828	0.705
52DAP/47DAP	0.57666	0.088
57DAP/52DAP	0.84268	0.845

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77088	0.059
17DAP/reference	1.04116	0.696
27DAP/reference	1.09293	0.103
39DAP/reference	1.11051	0.14
41DAP/reference	0.90212	0.267
42DAP/reference	1.06012	0.311
43DAP/reference	1.10069	0.269
47DAP/reference	1.06594	0.148
52DAP/reference	0.88089	0.086
57DAP/reference	1.0118	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73551	0.036
27DAP/17DAP	0.71559	0.132
39DAP/27DAP	1.24684	0.275
41DAP/39DAP	0.75097	0.104
42DAP/41DAP	1.11752	0.282
43DAP/42DAP	1.02187	0.83
47DAP/43DAP	0.85013	0.057
52DAP/47DAP	0.95853	0.857
57DAP/52DAP	0.67676	0.059
57DAP/7DAP	0.69662	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89182	0.146
17DAP/reference	0.98672	0.518
27DAP/reference	0.78035	0.033
39DAP/reference	1.27046	0.077
41DAP/reference	1.04276	1
42DAP/reference	1.24309	0.076
43DAP/reference	1.06732	0.386
47DAP/reference	1.27126	0.091
52DAP/reference	1.07304	0.732
57DAP/reference	1.0229	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73474	0.013
17DAP/reference	0.88127	0.072
27DAP/reference	0.97101	0.381
39DAP/reference	1.02505	1
41DAP/reference	0.97763	0.451
42DAP/reference	0.89911	0.15
43DAP/reference	0.97953	0.62
47DAP/reference	0.89976	0.087
52DAP/reference	0.89181	0.22
57DAP/reference	0.93005	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84219	0.169
17DAP/reference	0.94022	0.444
27DAP/reference	1.00609	0.763
39DAP/reference	1.13483	0.67
41DAP/reference	1.08129	0.455
42DAP/reference	1.11598	0.47
43DAP/reference	1.15623	0.667
47DAP/reference	1.09208	0.239
52DAP/reference	1.27056	0.77
57DAP/reference	1.00581	0.947

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01966	1
26DAP/20DAP	1.31181	0.549
34DAP/26DAP	1.06053	1
51DAP/34DAP	1.08452	0.785
52DAP/51DAP	0.64978	1
53DAP/52DAP	0.61835	0.057
55DAP/53DAP	0.74173	0.203
57DAP/55DAP	1.09863	0.779
62DAP/57DAP	0.78973	0.871
68DAP/62DAP	0.93459	0.769
68DAP/14DAP	1.10928	0.85

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9068	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.83889	0.058
Mature Green Tomato/Ripe Tomato	2.05997	0.018
Immature Eggplant/Mature Eggplant	1.44513	0.05
Ripe Pepper/Ripe Tomato	0.59833	0.224
Mature Eggplant/Ripe Tomato	0.61894	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.65478	0.536
1-1-2/M82	1.03754	1
12-2/M82	1.2788	1
12-4/M82	1.13242	1
1-3/M82	1.05634	1
2-1-1/M82	1.52324	0.764
2-1/M82	0.89771	1
2-6/M82	N/A	N/A
3-2/M82	1.25013
4-1-1/M82	1.07135	1
4-1/M82	0.58249
4-3-2/M82	1.85185	0.241
4-3/M82	1.74333	0.268
5-3/M82	1.06419	1
6-2/M82	2.46606	0.253
6-3/M82	0.76929
7-1/M82	0.69006	0.443
7-2/M82	1.05358
9-3-2/M82	1.63454

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	4.49507	1
IL2-6/WTpooled	2.32123	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95078	1
IL12-4/WTpooled	1.1452	0.839
IL1-4/WTpooled	0.97038	1
WT/WTpooled	1.06823	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.87351	0.497

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86842	1
DC3000/delta hrp 6h	1.06024	0.95
DC3000/delta hrp 12h	0.98048	1
DC3000/delta hrp 24h	0.7634	0.096

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.64225	0.11
DC3000 delta B/DC3000 delta AB	0.69143	0.039

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0282	1
Exp 36h	0.72309	0.393
Exp 60h	0.88696	0.754

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.02107	1
Var 0h	0.83516	0.933
Var 12h I row2-row1	0.80317	0.338
Var 12h NI row2-row1	1.05938	1
Var 36h I row2-row1	1.11892	0.908
Var 36h NI row2-row1	1.30912	0.482
Var 60h I row2-row1	0.77374
Var 60h NI row2-row1	1.21607	0.904
Time course 0hI-0hNI	1.05796	1
Time course 12hI-12hNI	0.9328	0.431
Time course 36hI-36hNI	0.83077	0.07
Time course 60hI-60hNI	0.35878	0.006

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.99064	0.789
transgenic ySAMdc/azygous control (breaker)	1.23248	1
transgenic ySAMdc/azygous control (red)	1.10647	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02053	0.301

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01099	0.277

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.09384	0.084
Manapal/WT (break)	2.67402	0.123
Manapal/WT (red)	1.93027	0.142